The GEM-PRO Pipeline

Introduction

The GEM-PRO pipeline is focused on annotating genome-scale models with protein structure information. Any SBML model can be used as input to the pipeline, although it is not required to have a one. Here are the possible starting points for using the pipeline:

  • An SBML model in SBML (.sbml, .xml), or MATLAB (.mat) formats
  • A list of gene IDs ([‘b0001’, ‘b0002’, …])
  • A dictionary of gene IDs and their sequences ({‘b0001’:’MSAVEVEEAP..’, ‘b0002’:’AERAPLS’, …})